|
| Status |
Public on Jan 12, 2023 |
| Title |
pdx_breast_tumor_TNBC005 |
| Sample type |
RNA |
| |
|
| Source name |
pdx established from pre-treatment breast tumor biopsy
|
| Organism |
Homo sapiens |
| Characteristics |
xenograft: TNBC005
disease state: breast cancer
|
| Growth protocol |
Tumor cells were engrafted into NOD/SCID mice and passaged through three generations.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Fresh tumor core biopsies were placed into a 1.5 ml vial of RNAlater (Qiagen) at room temperature, then held in a 4°C refrigerator (6-72 hours) and after that stored frozen at -20°C until use. RNA was extracted using PicoPure RNA isolation kit (ThermoFisher Scientific, Waltham, MA) following the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
We performed an in vitro transcription reaction to produce biotin-labeled cRNA from the cDNA.
|
| |
|
| Hybridization protocol |
The cRNA is hybridized to the oligonucleotide probes on the array.
|
| Scan protocol |
Immediately following the hybridization, the hybridized probe arrays undergo an automated washing and staining protocol on the fluidic station and are then scanned on the GeneChip Scanner.
|
| Description |
PDX tumor
|
| Data processing |
RMA signal calculated using R/Bioconductor.
|
| |
|
| Submission date |
Oct 21, 2022 |
| Last update date |
Jan 12, 2023 |
| Contact name |
Jeffrey Chang |
| E-mail(s) |
jeffrey.t.chang@uth.tmc.edu
|
| Organization name |
University of Texas
|
| Street address |
6431 Fannin St
|
| City |
Houston |
| ZIP/Postal code |
77019 |
| Country |
USA |
| |
|
| Platform ID |
GPL96 |
| Series (1) |
| GSE216333 |
Predictors of success in establishing orthotopic patient-derived xenograft models of triple negative breast cancer |
|
